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GeneBe API Showcase

This page demonstrates how to use the GeneBe API to query variant information. The API provides programmatic access to genomic annotations and variant data.

API presented here should be used for checking single variants. If you want to check many variants at once, please use other API endpoints that you will find in the documentation.

Documentation & Advanced Usage

Complete API documentation:docs.genebe.net/docs/api/overview/

Interactive endpoint tester:api.genebe.net/cloud/gb-api-doc/swagger-ui/

Python client for pandas:pypi.org/project/genebe/

Java CLI for VCF files:github.com/pstawinski/genebe-cli

All tools documented at:docs.genebe.net

API Request Examples for Variant: 14-20456008-G-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=14&pos=20456008&ref=G&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "14",
      "pos": 20456008,
      "ref": "G",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "ENST00000216714.8",
      "consequences": [
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "NM_001641.4",
          "protein_id": "NP_001632.2",
          "transcript_support_level": null,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 318,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 957,
          "cdna_start": 390,
          "cdna_end": null,
          "cdna_length": 1453,
          "mane_select": "ENST00000216714.8",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000216714.8",
          "protein_id": "ENSP00000216714.3",
          "transcript_support_level": 1,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 318,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 957,
          "cdna_start": 390,
          "cdna_end": null,
          "cdna_length": 1453,
          "mane_select": "NM_001641.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000398030.8",
          "protein_id": "ENSP00000381111.4",
          "transcript_support_level": 1,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 318,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 957,
          "cdna_start": 324,
          "cdna_end": null,
          "cdna_length": 1387,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000555414.5",
          "protein_id": "ENSP00000451979.1",
          "transcript_support_level": 1,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 318,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 957,
          "cdna_start": 369,
          "cdna_end": null,
          "cdna_length": 1437,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "n.573G>C",
          "hgvs_p": null,
          "transcript": "ENST00000553555.5",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1603,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "NM_001244249.2",
          "protein_id": "NP_001231178.1",
          "transcript_support_level": null,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 318,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 957,
          "cdna_start": 385,
          "cdna_end": null,
          "cdna_length": 1448,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "NM_080648.3",
          "protein_id": "NP_542379.1",
          "transcript_support_level": null,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 318,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 957,
          "cdna_start": 324,
          "cdna_end": null,
          "cdna_length": 1387,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "NM_080649.3",
          "protein_id": "NP_542380.1",
          "transcript_support_level": null,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 318,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 957,
          "cdna_start": 334,
          "cdna_end": null,
          "cdna_length": 1397,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000553681.5",
          "protein_id": "ENSP00000451327.1",
          "transcript_support_level": 3,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 262,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 791,
          "cdna_start": 261,
          "cdna_end": null,
          "cdna_length": 899,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000555839.5",
          "protein_id": "ENSP00000452460.1",
          "transcript_support_level": 2,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 241,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 728,
          "cdna_start": 377,
          "cdna_end": null,
          "cdna_length": 952,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000556054.5",
          "protein_id": "ENSP00000451170.1",
          "transcript_support_level": 3,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 173,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 523,
          "cdna_start": 403,
          "cdna_end": null,
          "cdna_length": 773,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.102G>C",
          "hgvs_p": "p.Gln34His",
          "transcript": "ENST00000557592.5",
          "protein_id": "ENSP00000451060.1",
          "transcript_support_level": 5,
          "aa_start": 34,
          "aa_end": null,
          "aa_length": 171,
          "cds_start": 102,
          "cds_end": null,
          "cds_length": 517,
          "cdna_start": 225,
          "cdna_end": null,
          "cdna_length": 640,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.102G>C",
          "hgvs_p": "p.Gln34His",
          "transcript": "ENST00000557150.5",
          "protein_id": "ENSP00000452418.1",
          "transcript_support_level": 3,
          "aa_start": 34,
          "aa_end": null,
          "aa_length": 161,
          "cds_start": 102,
          "cds_end": null,
          "cds_length": 487,
          "cdna_start": 355,
          "cdna_end": null,
          "cdna_length": 740,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000557344.5",
          "protein_id": "ENSP00000452137.1",
          "transcript_support_level": 2,
          "aa_start": 51,
          "aa_end": null,
          "aa_length": 145,
          "cds_start": 153,
          "cds_end": null,
          "cds_length": 439,
          "cdna_start": 385,
          "cdna_end": null,
          "cdna_length": 671,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His",
          "transcript": "ENST00000557181.5",
          "protein_id": "ENSP00000452304.1",
          "transcript_support_level": 3,
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          "cds_start": 153,
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          "cdna_start": 396,
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          "cdna_length": 566,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "c.102G>C",
          "hgvs_p": "p.Gln34His",
          "transcript": "ENST00000553368.1",
          "protein_id": "ENSP00000451491.1",
          "transcript_support_level": 3,
          "aa_start": 34,
          "aa_end": null,
          "aa_length": 40,
          "cds_start": 102,
          "cds_end": null,
          "cds_length": 125,
          "cdna_start": 281,
          "cdna_end": null,
          "cdna_length": 304,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "n.*73G>C",
          "hgvs_p": null,
          "transcript": "ENST00000554325.1",
          "protein_id": "ENSP00000450604.1",
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 568,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "n.219G>C",
          "hgvs_p": null,
          "transcript": "ENST00000554813.5",
          "protein_id": null,
          "transcript_support_level": 3,
          "aa_start": null,
          "aa_end": null,
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          "cdna_start": null,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "n.600G>C",
          "hgvs_p": null,
          "transcript": "ENST00000555306.5",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
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          "cdna_length": 898,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "n.769G>C",
          "hgvs_p": null,
          "transcript": "ENST00000557159.5",
          "protein_id": null,
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1803,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "APEX1",
          "gene_hgnc_id": 587,
          "hgvs_c": "n.233G>C",
          "hgvs_p": null,
          "transcript": "ENST00000557365.1",
          "protein_id": null,
          "transcript_support_level": 3,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
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        {
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        {
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      ],
      "gene_symbol": "APEX1",
      "gene_hgnc_id": 587,
      "dbsnp": "rs1048945",
      "frequency_reference_population": 0.033398174,
      "hom_count_reference_population": 1062,
      "allele_count_reference_population": 53911,
      "gnomad_exomes_af": 0.0344119,
      "gnomad_genomes_af": 0.0236682,
      "gnomad_exomes_ac": 50306,
      "gnomad_genomes_ac": 3605,
      "gnomad_exomes_homalt": 1007,
      "gnomad_genomes_homalt": 55,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.004014521837234497,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.055,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.1362,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.35,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 1.371,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -12,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BS1,BS2",
      "acmg_by_gene": [
        {
          "score": -12,
          "benign_score": 12,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BS1",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000216714.8",
          "gene_symbol": "APEX1",
          "hgnc_id": 587,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.153G>C",
          "hgvs_p": "p.Gln51His"
        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}